Summary of 50-Tainaka-MouseBodyCUBIC

SSBD:database
SSBD:database URL
Title
-
Description
-
Relase date
2017-10-03
Updated date
2018-11-15
License
CC BY
Kind
Image data based on Experiment
Number of Datasets
40 ( Image datasets: 40, Quantitative data datasets: 0 )
Size of Datasets
113.4 MB ( Image datasets: 113.4 MB, Quantitative data datasets: 0 bytes )

Organism(s)
M. musculus
Gene symbol(s)
NA
Protein name(s)
NA

Datatype
organ structure
Molecular Function (MF)
Biological Process (BP)
-
Cellular Component (CC)
-
Biological Imaging Method
-
XYZ Scale
XY: 0.001 inch/pixel, Z: NA
T scale
-

Image Acquisition
Experiment type
Other
Microscope type
ConfocalMicroscope
Acquisition mode
LaserScanningConfocalMicroscopy
Contrast method
Fluorescence
Microscope model
LaVision Bio Tec Ultramicroscope + Olympus MVX-ZB10
Detector model
Andor sCMOS CCD camera Neo 5.5
Objective model
Olympus MVPLAPO 0.63x/0.15
Filter set
Ultramicroscope filter wheel unit

Related paper(s)

Kazuki Tainaka, Shimpei I Kubota, Takeru Q Suyama, Etsuo A Susaki, Dimitri Perrin, Maki Ukai-Tadenuma, Hideki Ukai, Hiroki R Ueda (2014) Whole-body imaging with single-cell resolution by tissue decolorization., Cell, Volume 159, Number 4, pp. 911-24

Published in 2014 Nov 6

(Abstract) The development of whole-body imaging at single-cell resolution enables system-level approaches to studying cellular circuits in organisms. Previous clearing methods focused on homogenizing mismatched refractive indices of individual tissues, enabling reductions in opacity but falling short of achieving transparency. Here, we show that an aminoalcohol decolorizes blood by efficiently eluting the heme chromophore from hemoglobin. Direct transcardial perfusion of an aminoalcohol-containing cocktail that we previously termed CUBIC coupled with a 10 day to 2 week clearing protocol decolorized and rendered nearly transparent almost all organs of adult mice as well as the entire body of infant and adult mice. This CUBIC-perfusion protocol enables rapid whole-body and whole-organ imaging at single-cell resolution by using light-sheet fluorescent microscopy. The CUBIC protocol is also applicable to 3D pathology, anatomy, and immunohistochemistry of various organs. These results suggest that whole-body imaging of colorless tissues at high resolution will contribute to organism-level systems biology.
(MeSH Terms)

Contact
Hiroki R Ueda , RIKEN , Quantitative Biology Center , Laboratory for Synthetic Biology
Contributors
Kazuki Tainaka, Shimpei I. Kubota, Takeru Q. Suyama, Etsuo A. Susaki, Dimitri Perrin, Maki Ukai-Tadenuma, Hideki Ukai, Hiroki R. Ueda


Dataset List of 50-Tainaka-MouseBodyCUBIC

#
Dataset ID
Kind
Size
4D View
SSBD:OMERO
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# 1307
Datast ID Fig2A_DV-chest
Dataset Kind Image data
Dataset Size 10.7 MB
4D view
SSBD:OMERO
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# 1308
Datast ID Fig2A_DV-dorsal
Dataset Kind Image data
Dataset Size 13.3 MB
4D view
SSBD:OMERO
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# 1309
Datast ID Fig2A_DV-head
Dataset Kind Image data
Dataset Size 6.5 MB
4D view
SSBD:OMERO
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# 1310
Datast ID Fig2A_DV-whole
Dataset Kind Image data
Dataset Size 4.7 MB
4D view
SSBD:OMERO
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# 1311
Datast ID Fig2A_VD-chest
Dataset Kind Image data
Dataset Size 15.3 MB
4D view
SSBD:OMERO
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# 1312
Datast ID Fig2A_VD-head
Dataset Kind Image data
Dataset Size 9.8 MB
4D view
SSBD:OMERO
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# 1313
Datast ID Fig2A_VD-ventral
Dataset Kind Image data
Dataset Size 8.7 MB
4D view
SSBD:OMERO
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# 1314
Datast ID Fig2A_VD-whole
Dataset Kind Image data
Dataset Size 2.8 MB
4D view
SSBD:OMERO
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# 1315
Datast ID Fig4_heart_X
Dataset Kind Image data
Dataset Size 1.3 MB
4D view
SSBD:OMERO
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# 1316
Datast ID Fig4_heart_Y
Dataset Kind Image data
Dataset Size 1.3 MB
4D view
SSBD:OMERO
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# 1317
Datast ID Fig4_heart_Z
Dataset Kind Image data
Dataset Size 2.4 MB
4D view
SSBD:OMERO
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# 1318
Datast ID Fig4_intestine_X
Dataset Kind Image data
Dataset Size 521.6 KB
4D view
SSBD:OMERO
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# 1319
Datast ID Fig4_intestine_Y
Dataset Kind Image data
Dataset Size 422.0 KB
4D view
SSBD:OMERO
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# 1320
Datast ID Fig4_intestine_Z
Dataset Kind Image data
Dataset Size 1.2 MB
4D view
SSBD:OMERO
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# 1321
Datast ID Fig4_kidney_X
Dataset Kind Image data
Dataset Size 1.0 MB
4D view
SSBD:OMERO
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# 1322
Datast ID Fig4_kidney_Y
Dataset Kind Image data
Dataset Size 277.8 KB
4D view
SSBD:OMERO
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# 1323
Datast ID Fig4_kidney_Z
Dataset Kind Image data
Dataset Size 2.2 MB
4D view
SSBD:OMERO
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# 1324
Datast ID Fig4_liver_X
Dataset Kind Image data
Dataset Size 540.4 KB
4D view
SSBD:OMERO
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# 1325
Datast ID Fig4_liver_Y
Dataset Kind Image data
Dataset Size 747.6 KB
4D view
SSBD:OMERO
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# 1326
Datast ID Fig4_liver_Z
Dataset Kind Image data
Dataset Size 2.2 MB
4D view
SSBD:OMERO
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# 1327
Datast ID Fig4_lung_X
Dataset Kind Image data
Dataset Size 704.4 KB
4D view
SSBD:OMERO
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# 1328
Datast ID Fig4_lung_Y
Dataset Kind Image data
Dataset Size 1.1 MB
4D view
SSBD:OMERO
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# 1329
Datast ID Fig4_lung_Z
Dataset Kind Image data
Dataset Size 1.5 MB
4D view
SSBD:OMERO
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# 1330
Datast ID Fig4_muscle_X
Dataset Kind Image data
Dataset Size 525.7 KB
4D view
SSBD:OMERO
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# 1331
Datast ID Fig4_muscle_Y
Dataset Kind Image data
Dataset Size 337.7 KB
4D view
SSBD:OMERO
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# 1332
Datast ID Fig4_muscle_Z
Dataset Kind Image data
Dataset Size 1.5 MB
4D view
SSBD:OMERO
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# 1333
Datast ID Fig4_pancreas_X
Dataset Kind Image data
Dataset Size 346.3 KB
4D view
SSBD:OMERO
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# 1334
Datast ID Fig4_pancreas_Y
Dataset Kind Image data
Dataset Size 380.8 KB
4D view
SSBD:OMERO
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# 1335
Datast ID Fig4_pancreas_Z
Dataset Kind Image data
Dataset Size 973.0 KB
4D view
SSBD:OMERO
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# 1336
Datast ID Fig4_spleen_X
Dataset Kind Image data
Dataset Size 475.8 KB
4D view
SSBD:OMERO
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# 1337
Datast ID Fig4_spleen_Y
Dataset Kind Image data
Dataset Size 684.4 KB
4D view
SSBD:OMERO
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# 1338
Datast ID Fig4_spleen_Z
Dataset Kind Image data
Dataset Size 869.6 KB
4D view
SSBD:OMERO
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# 1339
Datast ID Fig4_stomach_X
Dataset Kind Image data
Dataset Size 351.3 KB
4D view
SSBD:OMERO
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# 1340
Datast ID Fig4_stomach_Y
Dataset Kind Image data
Dataset Size 360.2 KB
4D view
SSBD:OMERO
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# 1341
Datast ID Fig4_stomach_Z
Dataset Kind Image data
Dataset Size 834.2 KB
4D view
SSBD:OMERO
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# 1342
Datast ID FigS3C_DV-chest
Dataset Kind Image data
Dataset Size 3.8 MB
4D view
SSBD:OMERO
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# 1343
Datast ID FigS3C_DV-dorsal
Dataset Kind Image data
Dataset Size 3.0 MB
4D view
SSBD:OMERO
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# 1344
Datast ID FigS3C_head
Dataset Kind Image data
Dataset Size 3.9 MB
4D view
SSBD:OMERO
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# 1345
Datast ID FigS3C_VD-chest
Dataset Kind Image data
Dataset Size 4.3 MB
4D view
SSBD:OMERO
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# 1346
Datast ID FigS3C_VD-ventral
Dataset Kind Image data
Dataset Size 1.7 MB
4D view
SSBD:OMERO
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